Predicts disease specific pathogenicity score of clinical sequencing panel variants. PathoPredictor is a disease specific ensemble classifier of pathogenicity built on regional constraint and variant level features. This software has been trained with variants from clinical sequencing results to generate pathogenicity scores from disease specific combinations of regional constraint and variant features from ClinVar. It suits for predicting missense variant pathogenicity for cardiomyopathy, epilepsy and rasopathies.